Sequences of multiple bacterial genomes and a Chlamydia trachomatis genotype from direct sequencing of DNA derived from a vaginal swab diagnostic specimen
Sequences of multiple bacterial genomes and a Chlamydia trachomatis genotype from direct sequencing of DNA derived from a vaginal swab diagnostic specimen
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DOI：
10.1111/1469-0691.12237
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发表时间：
2013-09-01
影响因子：
14.2
通讯作者：
Giffard, P. M.
中科院分区：
文献类型：
--
作者：
Andersson, P.;Klein, M.;Giffard, P. M.
对来自沙眼衣原体阳性阴道拭子的全基因组扩增DNA进行超深Illumina测序。读数与参考基因组的比对允许从沙眼衣原体染色体和质粒中进行稳健的SNP鉴定。这表明标本中的沙眼衣原体与测序的泌尿生殖道血清型F、进化枝T1分离株F-SW 4非常密切相关。此外，获得了产黑色素普雷沃氏菌、迷走加德纳氏菌、梭菌基因组的高全基因组覆盖率。BVAB 3和人型支原体。这说明了宏基因组数据提供来自诊断样本中的多个分类群的高分辨率细菌分型数据的潜力。
Ultra-deep Illumina sequencing was performed on whole genome amplified DNA derived from a Chlamydia trachomatis-positive vaginal swab. Alignment of reads with reference genomes allowed robust SNP identification from the C.trachomatis chromosome and plasmid. This revealed that the C.trachomatis in the specimen was very closely related to the sequenced urogenital, serovar F, clade T1 isolate F-SW4. In addition, high genome-wide coverage was obtained for Prevotella melaninogenica, Gardnerella vaginalis, Clostridiales genomosp. BVAB3 and Mycoplasma hominis. This illustrates the potential of metagenome data to provide high resolution bacterial typing data from multiple taxa in a diagnostic specimen.